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Updated: Oct 13, 2025

A Protocol for Computer-Based Protein Structure and Function Prediction
Published on: November 3, 2011
AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with
Mihaly Varadi1, Stephen Anyango1, Mandar Deshpande1
1European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, UK.
Abstract:
The AlphaFold Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) is an openly accessible, extensive database of high-accuracy protein-structure predictions. Powered by AlphaFold v2.0 of DeepMind, it has enabled an unprecedented expansion of the structural coverage of the known protein-sequence space. AlphaFold DB provides programmatic access to and interactive visualization of predicted atomic coordinates, per-residue and pairwise model-confidence estimates and predicted aligned errors. The initial release of AlphaFold DB contains over 360,000 predicted structures across 21 model-organism proteomes, which will soon be expanded to cover most of the (over 100 million) representative sequences from the UniRef90 data set.
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